1 // gdcmHeaderHelper.cxx
2 //-----------------------------------------------------------------------------
3 #include "gdcmHeaderHelper.h"
5 #include "gdcmUtil.h" //for debug
12 int GetDir(std::string dPath, std::list<std::string> &filenames)
14 //For now dPath should have an ending "\"
15 WIN32_FIND_DATA FileData;
17 hFile = FindFirstFile((dPath+"*").c_str(), &FileData);
18 if ( hFile == INVALID_HANDLE_VALUE )
24 if( strncmp(FileData.cFileName, ".", 1) != 0 )
25 filenames.push_back( dPath+FileData.cFileName );
26 while( FindNextFile(hFile, &FileData ) != 0)
28 if( strncmp(FileData.cFileName, ".", 1) != 0 )
29 filenames.push_back( dPath+FileData.cFileName );
37 int GetDir(std::string dPath, std::list<std::string> &filenames)
39 DIR *dir = opendir( dPath.c_str() );
41 while((entry = readdir(dir)) != NULL)
43 // if( strncmp(entry->d_name, ".", 1) != 0 && strncmp(entry->d_name, "..", 2) != 0)
44 if( strncmp(entry->d_name, ".", 1) != 0 )
46 filenames.push_back( dPath + "/" + entry->d_name );
55 //-----------------------------------------------------------------------------
57 //-----------------------------------------------------------------------------
58 // Constructor / Destructor
60 * \ingroup gdcmHeaderHelper
63 gdcmHeaderHelper::gdcmHeaderHelper() : gdcmHeader( ) {
68 * \ingroup gdcmHeaderHelper
71 gdcmHeaderHelper::gdcmHeaderHelper(const char *InFilename,
72 bool exception_on_error,
73 bool enable_sequences,
75 : gdcmHeader( InFilename,
82 //-----------------------------------------------------------------------------
85 //-----------------------------------------------------------------------------
88 * \ingroup gdcmHeaderHelper
89 * \brief Return the size (in bytes) of a single pixel of data.
90 * @return The size in bytes of a single pixel of data.
93 int gdcmHeaderHelper::GetPixelSize() {
95 // 0028 0100 US IMG Bits Allocated
96 // (in order no to be messed up by old RGB images)
97 if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24")
100 std::string PixelType = GetPixelType();
101 if (PixelType == "8U" || PixelType == "8S")
103 if (PixelType == "16U" || PixelType == "16S")
105 if (PixelType == "32U" || PixelType == "32S")
107 if (PixelType == "FD") // to help unfortunate users to manage DOUBLE
109 dbg.Verbose(0, "gdcmHeader::GetPixelSize: Unknown pixel type");
114 * \ingroup gdcmHeaderHelper
115 * \brief Build the Pixel Type of the image.
116 * Possible values are:
117 * - 8U unsigned 8 bit,
119 * - 16U unsigned 16 bit,
120 * - 16S signed 16 bit,
121 * - 32U unsigned 32 bit,
122 * - 32S signed 32 bit,
124 * \warning 12 bit images appear as 16 bit.
125 * \ 24 bit images appear as 8 bit
126 * \ DOUBLE images are coded as 64 bits
127 * \ (no DOUBLE images in kosher DICOM,
128 * \ but so usefull for people that miss them ;-)
131 std::string gdcmHeaderHelper::GetPixelType() {
132 std::string BitsAlloc;
133 BitsAlloc = GetEntryByNumber(0x0028, 0x0100);
134 if (BitsAlloc == GDCM_UNFOUND) { // Bits Allocated
135 dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Bits Allocated");
136 BitsAlloc = std::string("16");
138 if (BitsAlloc == "12") // It will be unpacked
139 BitsAlloc = std::string("16");
140 else if (BitsAlloc == "24") // (in order no to be messed up
141 BitsAlloc = std::string("8"); // by old RGB images)
144 Signed = GetEntryByNumber(0x0028, 0x0103);
145 if (Signed == GDCM_UNFOUND) { // "Pixel Representation"
146 dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Pixel Representation");
147 BitsAlloc = std::string("0");
149 if (BitsAlloc == "64") // to help users that want to deal with DOUBLE
153 Signed = std::string("U");
155 Signed = std::string("S");
157 return( BitsAlloc + Signed);
161 * \ingroup gdcmHeaderHelper
162 * \brief gets the info from 0028,0030 : Pixel Spacing
164 * @return X dimension of a pixel
166 float gdcmHeaderHelper::GetXSpacing() {
167 float xspacing, yspacing;
168 std::string StrSpacing = GetEntryByNumber(0x0028,0x0030);
170 if (StrSpacing == GDCM_UNFOUND) {
171 dbg.Verbose(0, "gdcmHeader::GetXSpacing: unfound Pixel Spacing (0028,0030)");
174 if( sscanf( StrSpacing.c_str(), "%f\\%f", &yspacing, &xspacing) != 2)
176 if (xspacing == 0.) {
177 dbg.Verbose(0, "gdcmHeader::GetYSpacing: gdcmData/CT-MONO2-8-abdo.dcm problem");
178 // seems to be a bug in the header ...
179 sscanf( StrSpacing.c_str(), "%f\\0\\%f", &yspacing, &xspacing);
185 * \ingroup gdcmHeaderHelper
186 * \brief gets the info from 0028,0030 : Pixel Spacing
188 * @return Y dimension of a pixel
190 float gdcmHeaderHelper::GetYSpacing() {
191 float xspacing, yspacing;
192 std::string StrSpacing = GetEntryByNumber(0x0028,0x0030);
194 if (StrSpacing == GDCM_UNFOUND) {
195 dbg.Verbose(0, "gdcmHeader::GetYSpacing: unfound Pixel Spacing (0028,0030)");
198 if( sscanf( StrSpacing.c_str(), "%f\\%f", &yspacing, &xspacing) != 2)
200 if (xspacing == 0.) {
201 dbg.Verbose(0, "gdcmHeader::GetYSpacing: gdcmData/CT-MONO2-8-abdo.dcm problem");
202 // seems to be a bug in the header ...
203 sscanf( StrSpacing.c_str(), "%f\\0\\%f", &yspacing, &xspacing);
209 *\ingroup gdcmHeaderHelper
210 *\brief gets the info from 0018,0088 : Space Between Slices
211 *\ else from 0018,0050 : Slice Thickness
213 * @return Z dimension of a voxel-to be
215 float gdcmHeaderHelper::GetZSpacing() {
216 // Spacing Between Slices : distance entre le milieu de chaque coupe
217 // Les coupes peuvent etre :
218 // jointives (Spacing between Slices = Slice Thickness)
219 // chevauchantes (Spacing between Slices < Slice Thickness)
220 // disjointes (Spacing between Slices > Slice Thickness)
221 // Slice Thickness : epaisseur de tissus sur laquelle est acquis le signal
222 // ca interesse le physicien de l'IRM, pas le visualisateur de volumes ...
223 // Si le Spacing Between Slices est absent,
224 // on suppose que les coupes sont jointives
226 std::string StrSpacingBSlices = GetEntryByNumber(0x0018,0x0088);
228 if (StrSpacingBSlices == GDCM_UNFOUND) {
229 dbg.Verbose(0, "gdcmHeader::GetZSpacing: unfound StrSpacingBSlices");
230 std::string StrSliceThickness = GetEntryByNumber(0x0018,0x0050);
231 if (StrSliceThickness == GDCM_UNFOUND)
234 // if no 'Spacing Between Slices' is found,
235 // we assume slices join together
236 // (no overlapping, no interslice gap)
237 // if they don't, we're fucked up
238 return atof(StrSliceThickness.c_str());
240 return atof(StrSpacingBSlices.c_str());
244 float gdcmHeaderHelper::GetRescaleIntercept() {
246 std::string StrRescInter = GetEntryByNumber(0x0028,0x1052); //0028 1052 DS IMG Rescale Intercept
247 if (StrRescInter != GDCM_UNFOUND) {
248 if( sscanf( StrRescInter.c_str(), "%f", &resInter) != 1) {
249 dbg.Verbose(0, "gdcmHeader::GetRescaleIntercept: Rescale Slope is empty");
250 // bug in the element 0x0028,0x1052
256 float gdcmHeaderHelper::GetRescaleSlope() {
258 std::string StrRescSlope = GetEntryByNumber(0x0028,0x1053); //0028 1053 DS IMG Rescale Slope
259 if (StrRescSlope != GDCM_UNFOUND) {
260 if( sscanf( StrRescSlope.c_str(), "%f", &resSlope) != 1) {
261 dbg.Verbose(0, "gdcmHeader::GetRescaleSlope: Rescale Slope is empty");
262 // bug in the element 0x0028,0x1053
269 * \ingroup gdcmHeaderHelper
270 * \brief This function is intended to user who doesn't whan
271 * \ to have to manage a LUT and expects to get an RBG Pixel image
272 * \ (or a monochrome one ...)
273 * \warning to be used with GetImagePixels()
274 * @return 1 if Gray level, 3 if Color (RGB, YBR or PALETTE COLOR)
276 int gdcmHeaderHelper::GetNumberOfScalarComponents() {
278 if (GetSamplesPerPixel() ==3)
281 // 0028 0100 US IMG Bits Allocated
282 // (in order no to be messed up by old RGB images)
283 if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24")
286 std::string PhotometricInterpretation =
287 gdcmHeader::GetEntryByNumber(0x0028,0x0004);
289 if ( ( PhotometricInterpretation == "PALETTE COLOR ") ) {
290 if (HasLUT()) // PALETTE COLOR is NOT enough
296 //beware of trailing space at end of string
297 if (PhotometricInterpretation.find(GDCM_UNFOUND) <
298 PhotometricInterpretation.length() ||
299 PhotometricInterpretation.find("MONOCHROME1") <
300 PhotometricInterpretation.length() ||
301 PhotometricInterpretation.find("MONOCHROME2") <
302 PhotometricInterpretation.length() )
305 // we assume that *all* kinds of YBR are dealt with
310 * \ingroup gdcmHeaderHelper
311 * \brief This function is intended to user that DOESN'T want
312 * \to get RGB pixels image when it's stored as a PALETTE COLOR image
313 * \ - the (vtk) user is supposed to know how deal with LUTs -
314 * \warning to be used with GetImagePixelsRaw()
315 * @return 1 if Gray level, 3 if Color (RGB or YBR - NOT 'PALETTE COLOR' -)
317 int gdcmHeaderHelper::GetNumberOfScalarComponentsRaw() {
319 // 0028 0100 US IMG Bits Allocated
320 // (in order no to be messed up by old RGB images)
321 if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24")
324 // we assume that *all* kinds of YBR are dealt with
325 return GetSamplesPerPixel();
328 std::string gdcmHeaderHelper::GetStudyUID(){
329 return GetEntryByNumber(0x0020,0x000d); //0020 000d UI REL Study Instance UID
332 std::string gdcmHeaderHelper::GetSeriesUID(){
333 return GetEntryByNumber(0x0020,0x000e); //0020 000e UI REL Series Instance UID
336 std::string gdcmHeaderHelper::GetClassUID(){
337 return GetEntryByNumber(0x0008,0x0016); //0008 0016 UI ID SOP Class UID
340 std::string gdcmHeaderHelper::GetInstanceUID(){
341 return GetEntryByNumber(0x0008,0x0018); //0008 0018 UI ID SOP Instance UID
344 // Image Position Patient (0020,0032):
345 // If not found (ACR_NEMA) we try Image Position (0020,0030)
346 // If not found (ACR-NEMA), we consider Slice Location (0020,1041)
347 // or Location (0020,0050)
348 // as the Z coordinate,
349 // 0. for all the coordinates if nothing is found
351 // TODO : find a way to inform the caller nothing was found
352 // TODO : How to tell the caller a wrong number of values was found?
354 * \ingroup gdcmHeaderHelper
355 * \brief gets the info from 0020,0032 : Image Position Patient
356 *\ else from 0020,0030 : Image Position (RET)
358 * @return up-left image corner position
360 float gdcmHeaderHelper::GetXOrigin() {
361 float xImPos, yImPos, zImPos;
362 std::string StrImPos = GetEntryByNumber(0x0020,0x0032);
364 if (StrImPos == GDCM_UNFOUND) {
365 dbg.Verbose(0, "gdcmHeader::GetXImagePosition: unfound Image Position Patient (0020,0032)");
366 StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images
367 if (StrImPos == GDCM_UNFOUND) {
368 dbg.Verbose(0, "gdcmHeader::GetXImagePosition: unfound Image Position (RET) (0020,0030)");
369 // How to tell the caller nothing was found ?
373 if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3)
379 * \ingroup gdcmHeaderHelper
380 * \brief gets the info from 0020,0032 : Image Position Patient
381 * \ else from 0020,0030 : Image Position (RET)
383 * @return up-left image corner position
385 float gdcmHeaderHelper::GetYOrigin() {
386 float xImPos, yImPos, zImPos;
387 std::string StrImPos = GetEntryByNumber(0x0020,0x0032);
389 if (StrImPos == GDCM_UNFOUND) {
390 dbg.Verbose(0, "gdcmHeader::GetYImagePosition: unfound Image Position Patient (0020,0032)");
391 StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images
392 if (StrImPos == GDCM_UNFOUND) {
393 dbg.Verbose(0, "gdcmHeader::GetYImagePosition: unfound Image Position (RET) (0020,0030)");
394 // How to tell the caller nothing was found ?
398 if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3)
404 * \ingroup gdcmHeaderHelper
405 * \brief gets the info from 0020,0032 : Image Position Patient
406 * \ else from 0020,0030 : Image Position (RET)
407 * \ else from 0020,1041 : Slice Location
408 * \ else from 0020,0050 : Location
410 * @return up-left image corner position
412 float gdcmHeaderHelper::GetZOrigin() {
413 float xImPos, yImPos, zImPos;
414 std::string StrImPos = GetEntryByNumber(0x0020,0x0032);
415 if (StrImPos != GDCM_UNFOUND) {
416 if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) {
417 dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Image Position Patient (0020,0032)");
418 return 0.; // bug in the element 0x0020,0x0032
423 StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images
424 if (StrImPos != GDCM_UNFOUND) {
425 if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) {
426 dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Image Position (RET) (0020,0030)");
427 return 0.; // bug in the element 0x0020,0x0032
432 std::string StrSliceLocation = GetEntryByNumber(0x0020,0x1041);// for *very* old ACR-NEMA images
433 if (StrSliceLocation != GDCM_UNFOUND) {
434 if( sscanf( StrSliceLocation.c_str(), "%f", &zImPos) !=1) {
435 dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Slice Location (0020,1041)");
436 return 0.; // bug in the element 0x0020,0x1041
441 dbg.Verbose(0, "gdcmHeader::GetZImagePosition: unfound Slice Location (0020,1041)");
442 std::string StrLocation = GetEntryByNumber(0x0020,0x0050);
443 if (StrLocation != GDCM_UNFOUND) {
444 if( sscanf( StrLocation.c_str(), "%f", &zImPos) !=1) {
445 dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Location (0020,0050)");
446 return 0.; // bug in the element 0x0020,0x0050
451 dbg.Verbose(0, "gdcmHeader::GetYImagePosition: unfound Location (0020,0050)");
452 return 0.; // Hopeless
456 * \ingroup gdcmHeaderHelper
457 * \brief gets the info from 0020,0013 : Image Number
459 * @return image number
461 int gdcmHeaderHelper::GetImageNumber() {
462 //The function i atoi() takes the address of an area of memory as parameter and converts
463 //the string stored at that location to an integer using the external decimal to internal
464 //binary conversion rules. This may be preferable to sscanf() since atoi() is a much smaller,
465 // simpler and faster function. sscanf() can do all possible conversions whereas atoi() can
466 //only do single decimal integer conversions.
467 std::string StrImNumber = GetEntryByNumber(0x0020,0x0013); //0020 0013 IS REL Image Number
468 if (StrImNumber != GDCM_UNFOUND) {
469 return atoi( StrImNumber.c_str() );
475 * \ingroup gdcmHeaderHelper
476 * \brief gets the info from 0008,0060 : Modality
477 * @return ModalityType
479 ModalityType gdcmHeaderHelper::GetModality(void) {
480 std::string StrModality = GetEntryByNumber(0x0008,0x0060); //0008 0060 CS ID Modality
481 if (StrModality != GDCM_UNFOUND) {
482 if ( StrModality.find("AU") < StrModality.length()) return AU;
483 else if ( StrModality.find("AS") < StrModality.length()) return AS;
484 else if ( StrModality.find("BI") < StrModality.length()) return BI;
485 else if ( StrModality.find("CF") < StrModality.length()) return CF;
486 else if ( StrModality.find("CP") < StrModality.length()) return CP;
487 else if ( StrModality.find("CR") < StrModality.length()) return CR;
488 else if ( StrModality.find("CT") < StrModality.length()) return CT;
489 else if ( StrModality.find("CS") < StrModality.length()) return CS;
490 else if ( StrModality.find("DD") < StrModality.length()) return DD;
491 else if ( StrModality.find("DF") < StrModality.length()) return DF;
492 else if ( StrModality.find("DG") < StrModality.length()) return DG;
493 else if ( StrModality.find("DM") < StrModality.length()) return DM;
494 else if ( StrModality.find("DS") < StrModality.length()) return DS;
495 else if ( StrModality.find("DX") < StrModality.length()) return DX;
496 else if ( StrModality.find("ECG") < StrModality.length()) return ECG;
497 else if ( StrModality.find("EPS") < StrModality.length()) return EPS;
498 else if ( StrModality.find("FA") < StrModality.length()) return FA;
499 else if ( StrModality.find("FS") < StrModality.length()) return FS;
500 else if ( StrModality.find("HC") < StrModality.length()) return HC;
501 else if ( StrModality.find("HD") < StrModality.length()) return HD;
502 else if ( StrModality.find("LP") < StrModality.length()) return LP;
503 else if ( StrModality.find("LS") < StrModality.length()) return LS;
504 else if ( StrModality.find("MA") < StrModality.length()) return MA;
505 else if ( StrModality.find("MR") < StrModality.length()) return MR;
506 else if ( StrModality.find("NM") < StrModality.length()) return NM;
507 else if ( StrModality.find("OT") < StrModality.length()) return OT;
508 else if ( StrModality.find("PT") < StrModality.length()) return PT;
509 else if ( StrModality.find("RF") < StrModality.length()) return RF;
510 else if ( StrModality.find("RG") < StrModality.length()) return RG;
511 else if ( StrModality.find("RTDOSE") < StrModality.length()) return RTDOSE;
512 else if ( StrModality.find("RTIMAGE") < StrModality.length()) return RTIMAGE;
513 else if ( StrModality.find("RTPLAN") < StrModality.length()) return RTPLAN;
514 else if ( StrModality.find("RTSTRUCT")< StrModality.length()) return RTSTRUCT;
515 else if ( StrModality.find("SM") < StrModality.length()) return SM;
516 else if ( StrModality.find("ST") < StrModality.length()) return ST;
517 else if ( StrModality.find("TG") < StrModality.length()) return TG;
518 else if ( StrModality.find("US") < StrModality.length()) return US;
519 else if ( StrModality.find("VF") < StrModality.length()) return VF;
520 else if ( StrModality.find("XA") < StrModality.length()) return XA;
521 else if ( StrModality.find("XC") < StrModality.length()) return XC;
525 //throw error return value ???
526 // specified <> unknow in our database
534 * \ingroup gdcmHeaderHelper
535 * \brief gets the info from 0020,0037 : Image Orientation Patient
536 * @return cosines of image orientation patient
538 void gdcmHeaderHelper::GetImageOrientationPatient( float* iop ) {
540 //iop is supposed to be float[6]
541 iop[0] = iop[1] = iop[2] = iop[3] = iop[4] = iop[5] = 0;
543 std::string StrImOriPat = GetEntryByNumber(0x0020,0x0037); // 0020 0037 DS REL Image Orientation (Patient)
544 if (StrImOriPat != GDCM_UNFOUND) {
545 if( sscanf( StrImOriPat.c_str(), "%f\\%f\\%f\\%f\\%f\\%f",
546 &iop[0], &iop[1], &iop[2], &iop[3], &iop[4], &iop[5]) != 6) {
547 dbg.Verbose(0, "gdcmHeader::GetImageOrientationPatient: wrong Image Orientation Patient (0020,0037)");
548 return ; // bug in the element 0x0020,0x0037
555 StrImOriPat = GetEntryByNumber(0x0020,0x0035); //0020 0035 DS REL Image Orientation (RET)
556 if (StrImOriPat != GDCM_UNFOUND) {
557 if( sscanf( StrImOriPat.c_str(), "%f\\%f\\%f\\%f\\%f\\%f",
558 &iop[0], &iop[1], &iop[2], &iop[3], &iop[4], &iop[5]) != 6) {
559 dbg.Verbose(0, "gdcmHeader::GetImageOrientationPatient: wrong Image Orientation Patient (0020,0035)");
560 return ; // bug in the element 0x0020,0x0035
567 //-----------------------------------------------------------------------------
570 //-----------------------------------------------------------------------------
573 //-----------------------------------------------------------------------------
577 //-----------------------------------------------------------------------------
578 // gdcmSerieHeaderHelper
579 //-----------------------------------------------------------------------------
580 // Constructor / Destructor
581 gdcmSerieHeaderHelper::~gdcmSerieHeaderHelper(){
583 for (std::list<gdcmHeaderHelper*>::iterator it = CoherentGdcmFileList.begin();
584 it != CoherentGdcmFileList.end(); it++)
588 CoherentGdcmFileList.clear();
591 //-----------------------------------------------------------------------------
594 //-----------------------------------------------------------------------------
597 * \ingroup gdcmHeaderHelper
598 * \brief add a gdcmFile to the list based on file name
600 void gdcmSerieHeaderHelper::AddFileName(std::string filename) {
601 gdcmHeaderHelper *GdcmFile = new gdcmHeaderHelper( filename.c_str() );
602 this->CoherentGdcmFileList.push_back( GdcmFile );
606 * \ingroup gdcmHeaderHelper
607 * \brief add a gdcmFile to the list
609 void gdcmSerieHeaderHelper::AddGdcmFile(gdcmHeaderHelper *file){
610 this->CoherentGdcmFileList.push_back( file );
614 * \ingroup gdcmHeaderHelper
617 void gdcmSerieHeaderHelper::SetDirectory(std::string dir){
618 std::list<std::string> filenames_list;
619 GetDir(dir, filenames_list); //OS specific
621 for(std::list<std::string>::iterator it = filenames_list.begin(); it !=
622 filenames_list.end(); it++)
624 gdcmHeaderHelper *file = new gdcmHeaderHelper( it->c_str() );
625 this->CoherentGdcmFileList.push_back( file );
629 //This could be implemented in a 'Strategy Pattern' approach
630 //But as I don't know how to do it, I leave it this way
631 //BTW, this is also a Strategy, I don't know this is the best approach :)
632 void gdcmSerieHeaderHelper::OrderGdcmFileList(){
633 if( ImagePositionPatientOrdering() )
637 else if( ImageNumberOrdering() )
647 std::list<gdcmHeaderHelper*> &gdcmSerieHeaderHelper::GetGdcmFileList() {
648 return CoherentGdcmFileList;
651 //-----------------------------------------------------------------------------
654 //-----------------------------------------------------------------------------
657 * \ingroup gdcmHeaderHelper
659 * We may order, considering :
661 * -# Image Position Patient
664 bool gdcmSerieHeaderHelper::ImagePositionPatientOrdering()
665 //based on Jolinda's algorithm
667 //iop is calculated based on the file file
668 float *cosines = new float[6];
675 std::vector<float> distlist;
677 //!\todo rewrite this for loop.
678 for (std::list<gdcmHeaderHelper*>::iterator it = CoherentGdcmFileList.begin();
679 it != CoherentGdcmFileList.end(); it++)
682 (*it)->GetImageOrientationPatient(cosines);
684 //You only have to do this once for all slices in the volume. Next, for
685 //each slice, calculate the distance along the slice normal using the IPP
686 //tag ("dist" is initialized to zero before reading the first slice) :
687 normal[0] = cosines[1]*cosines[5] - cosines[2]*cosines[4];
688 normal[1] = cosines[2]*cosines[3] - cosines[0]*cosines[5];
689 normal[2] = cosines[0]*cosines[4] - cosines[1]*cosines[3];
691 ipp[0] = (*it)->GetXOrigin();
692 ipp[1] = (*it)->GetYOrigin();
693 ipp[2] = (*it)->GetZOrigin();
696 for (int i = 0; i < 3; ++i)
697 dist += normal[i]*ipp[i];
705 distlist.push_back( dist );
711 ipp[0] = (*it)->GetXOrigin();
712 ipp[1] = (*it)->GetYOrigin();
713 ipp[2] = (*it)->GetZOrigin();
716 for (int i = 0; i < 3; ++i)
717 dist += normal[i]*ipp[i];
726 distlist.push_back( dist );
728 min = (min < dist) ? min : dist;
729 max = (max > dist) ? max : dist;
734 //Then I order the slices according to the value "dist". Finally, once
735 //I've read in all the slices, I calculate the z-spacing as the difference
736 //between the "dist" values for the first two slices.
737 std::vector<gdcmHeaderHelper*> CoherentGdcmFileVector(n);
738 //CoherentGdcmFileVector.reserve( n );
739 CoherentGdcmFileVector.resize( n );
740 //assert( CoherentGdcmFileVector.capacity() >= n );
742 float step = (max - min)/(n - 1);
746 //VC++ don't understand what scope is !! it -> it2
747 for (std::list<gdcmHeaderHelper*>::iterator it2 = CoherentGdcmFileList.begin();
748 it2 != CoherentGdcmFileList.end(); it2++, n++)
751 //Assumption: all files are present (no one missing)
752 pos = (int)( fabs( (distlist[n]-min)/step) + .5 );
754 CoherentGdcmFileVector[pos] = *it2;
757 CoherentGdcmFileList.clear(); //this doesn't delete list's element, node only
759 //VC++ don't understand what scope is !! it -> it3
760 for (std::vector<gdcmHeaderHelper*>::iterator it3 = CoherentGdcmFileVector.begin();
761 it3 != CoherentGdcmFileVector.end(); it3++)
763 CoherentGdcmFileList.push_back( *it3 );
767 CoherentGdcmFileVector.clear();
773 //Based on Image Number
775 bool gdcmSerieHeaderHelper::ImageNumberOrdering() {
777 int n = 0;//CoherentGdcmFileList.size(); //O(N) operation !!
778 unsigned char *partition;
780 std::list<gdcmHeaderHelper*>::iterator it = CoherentGdcmFileList.begin();
781 min = max = (*it)->GetImageNumber();
783 for (; it != CoherentGdcmFileList.end(); it++, n++)
785 pos = (*it)->GetImageNumber();
788 min = (min < pos) ? min : pos;
791 //bzeros(partition, n); //Cette fonction est déconseillée, utilisez plutôt memset.
792 partition = new unsigned char[n];
793 memset(partition, 0, n);
795 std::vector<gdcmHeaderHelper*> CoherentGdcmFileVector(n);
797 //VC++ don't understand what scope is !! it -> it2
798 for (std::list<gdcmHeaderHelper*>::iterator it2 = CoherentGdcmFileList.begin();
799 it2 != CoherentGdcmFileList.end(); it2++)
801 pos = (*it2)->GetImageNumber();
802 CoherentGdcmFileVector[pos - min] = *it2;
803 partition[pos - min]++;
806 unsigned char mult = 1;
807 for(int i=0; i<n ; i++)
809 mult *= partition[i];
812 //VC++ don't understand what scope is !! it -> it3
813 CoherentGdcmFileList.clear(); //this doesn't delete list's element, node only
814 for (std::vector<gdcmHeaderHelper*>::iterator it3 = CoherentGdcmFileVector.begin();
815 it3 != CoherentGdcmFileVector.end(); it3++)
817 CoherentGdcmFileList.push_back( *it3 );
819 CoherentGdcmFileVector.clear();
825 bool gdcmSerieHeaderHelper::FileNameOrdering() {
827 //sort(CoherentGdcmFileList.begin(), CoherentGdcmFileList.end());
831 //-----------------------------------------------------------------------------